mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 155,132 | C→G | R161P (CGC→CCC) | pcnB ← | poly(A) polymerase |
| RA | CP009273 | 188,740 | C→G | I133M (ATC→ATG) | pyrH → | uridylate kinase |
| RA | CP009273 | 407,471 | C→T | W156* (TGG→TAG) | araJ ← | arabinose‑inducible putative transporter, MFS family |
| RA | CP009273 | 1,782,894 | C→A | A68E (GCA→GAA) | aroH → | 3‑deoxy‑D‑arabino‑heptulosonate‑7‑phosphate synthase, tryptophan repressible |
| MC JC | CP009273 | 2,400,028 | Δ9 bp | coding (85‑93/939 nt) | lrhA ← | transcriptional repressor of flagellar, motility and chemotaxis genes |
| RA | CP009273 | 3,208,093 | T→C | F563S (TTC→TCC) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | CP009273 | 3,466,500 | G→A | T125I (ACC→ATC) | fusA ← | protein chain elongation factor EF‑G, GTP‑binding |
| RA | CP009273 | 3,547,518 | G→A | E359K (GAA→AAA) | malT → | mal regulon transcriptional activator |
| RA | CP009273 | 3,729,347 | G→A | E337K (GAG→AAG) | xylR → | xylose divergent operon transcriptional activator |
| RA | CP009273 | 3,933,885 | G→T | L30I (CTT→ATT) | hsrA ← | putative multidrug or homocysteine efflux system |
| RA | CP009273 | 4,173,770 | T→G | D866E (GAT→GAG) | rpoB → | RNA polymerase, beta subunit |
| RA | CP009273 | 4,224,841 | C→T | H386Y (CAC→TAC) | pgi → | glucosephosphate isomerase |
| JC | Exported | 918 | Δ8 bp | intergenic (‑126/‑86) | aadA ← / → fdh | aminoglycoside adenylyltransferase (Murphy, 1985)/formate dehydrogenase from Pseudomonas sp. 101 with an N‑terminal his‑tag |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1800618 | 1801543 | 926 | 20 [15] | [16] 22 | [pfkB] | [pfkB] |
| * | * | ÷ | CP009273 | 1929101 | 1930590 | 1490 | 18 [16] | [16] 19 | [zwf] | [zwf] |
| * | * | ÷ | CP009273 | 4097464 | 4098436 | 973 | 18 [14] | [16] 21 | [pfkA] | [pfkA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 19796 = | NA (NA) | 842 (0.040) | 156/230 | 0.0 | 37.6% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | Exported | = 906 | 1399 (0.030) | intergenic (‑114/‑105) | aadA/fdh | aminoglycoside adenylyltransferase (Murphy, 1985)/formate dehydrogenase from Pseudomonas sp. 101 with an N‑terminal his‑tag | |||||
| * | ? | CP009273 | = 20563 | NA (NA) | 971 (0.050) | 162/230 | 0.0 | 25.3% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | Exported | 899 = | 2873 (0.070) | intergenic (‑107/‑112) | aadA/fdh | aminoglycoside adenylyltransferase (Murphy, 1985)/formate dehydrogenase from Pseudomonas sp. 101 with an N‑terminal his‑tag | |||||
| * | ? | CP009273 | 360104 = | 33 (0.470) | 25 (0.380) +AATTCC |
18/218 | 2.1 | 44.8% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | CP009273 | 4033989 = | 32 (0.460) | noncoding (113/120 nt) | rrfA | 5S ribosomal RNA of rrnA operon | |||||
| * | ? | CP009273 | 360104 = | 33 (0.470) | 10 (0.010) +AATTCCCC |
9/214 | 2.6 | 24.6% | intergenic (‑38/+557) | lacZ/lacI | pseudogene, truncated/DNA‑binding transcriptional repressor |
| ? | KX077536 | 8127 = | NA (NA) | intergenic (+52/–) | unknown/– | cat/– | |||||
| * | ? | CP009273 | 3576788 = | NA (NA) | 93 (1.330) | 50/230 | 0.2 | 88.6% | intergenic (+10/‑55) | yrhA/insA | pseudogene, interrupted by IS1E/IS1 repressor TnpA |
| ? | CP009273 | = 4232212 | 12 (0.170) | intergenic (‑30/+342) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | = 3577555 | NA (NA) | 91 (1.300) | 54/230 | 0.1 | 95.8% | intergenic (+15/‑1) | insB1/yrhA | IS1 transposase B/pseudogene, interrupted by IS1E |
| ? | CP009273 | 4232204 = | 4 (0.060) | intergenic (‑22/+350) | xylE/malG | D‑xylose transporter/maltose transporter subunit | |||||
| * | ? | CP009273 | 4532499 = | 10 (0.140) | 62 (0.960) | 46/212 | 0.2 | 84.2% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 14 (0.220) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 4532507 | 10 (0.140) | 65 (1.010) | 41/212 | 0.3 | 84.9% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 14 (0.220) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||